\section{Class List}
Here are the classes, structs, unions and interfaces with brief descriptions:\begin{DoxyCompactList}
\item\contentsline{section}{\hyperlink{classblast__filtering}{blast\_\-filtering} (Produces a filtered output of the input )}{\pageref{classblast__filtering}}{}
\item\contentsline{section}{\hyperlink{structbucket__norm}{bucket\_\-norm} (Data container holding changes in the normative array )}{\pageref{structbucket__norm}}{}
\item\contentsline{section}{\hyperlink{structbucket__pipe__binary}{bucket\_\-pipe\_\-binary} (A transport container )}{\pageref{structbucket__pipe__binary}}{}
\item\contentsline{section}{\hyperlink{classbuild__string}{build\_\-string} (Produces a row of chars for the protein given )}{\pageref{classbuild__string}}{}
\item\contentsline{section}{\hyperlink{classpipe__binary}{pipe\_\-binary} (Filters orthologs-\/ and inparalogs in parallel )}{\pageref{classpipe__binary}}{}
\item\contentsline{section}{\hyperlink{classpipe__bucket}{pipe\_\-bucket} (Produces buckets of numbered items to parse )}{\pageref{classpipe__bucket}}{}
\item\contentsline{section}{\hyperlink{classpipe__merge}{pipe\_\-merge} (Merges containers building a filtered set of orthologs-\/ and inparalogs )}{\pageref{classpipe__merge}}{}
\item\contentsline{section}{\hyperlink{classpipe__norm}{pipe\_\-norm} (Updates an norm\_\-t$\ast$$\ast$ object, if it's not done so in a previous phase )}{\pageref{classpipe__norm}}{}
\item\contentsline{section}{\hyperlink{classpipe__struct}{pipe\_\-struct} (Either builds co-\/orthologs or builds the strings for the result file )}{\pageref{classpipe__struct}}{}
\item\contentsline{section}{\hyperlink{classpipe__write}{pipe\_\-write} (Builds (writes) the result files, consisting of the strings given )}{\pageref{classpipe__write}}{}
\item\contentsline{section}{\hyperlink{classtaxon__pair}{taxon\_\-pair} (Defines the next protein to work on )}{\pageref{classtaxon__pair}}{}
\end{DoxyCompactList}
